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PathBLAST specifications

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Unique identifier OMICS_04886
Name PathBLAST
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability No
Maintained Yes

Publication for PathBLAST

PathBLAST citations

 (23)
library_books

Indexing a protein protein interaction network expedites network alignment

2015
PMCID: 4600321
PMID: 26453444
DOI: 10.1186/s12859-015-0756-0

[…] is a related problem in the context of local alignment [, ]. it matches a small query network to a large target network to find a subnetwork in the target that is similar to the query network. pathblast [], tale [], abinet [, ] fit in this category. pathblast queries a simple path against a target network and returns a ranked list of matching paths and the overlaps among […]

library_books

Systems analysis of host–parasite interactions

2015
PMCID: 4679367
PMID: 26306749
DOI: 10.1002/wsbm.1311

[…] proteins was feasible, and alternative biological functions were suggested for some annotated genes. suthram et al. further analyzed this network using a network alignment approach called pathblast, an algorithm that identifies conserved pathways between organisms by identifying conserved proteins and then testing for conserved interactions. through this, the authors found […]

library_books

The post genomic era of biological network alignment

2015
PMCID: 5270500
PMID: 28194172
DOI: 10.1186/s13637-015-0022-9

[…] are expected to enhance personalized health care via improved understanding of cellular functioning, disease, and therapeutics., we first discuss pairwise and then multiple local network aligners., pathblast [] aligns two ppi networks to identify their conserved pathways. an alignment graph is first built, in which a node represents a pair of putative orthologs (one from each network), […]

library_books

Reconstructing Genome Wide Protein–Protein Interaction Networks Using Multiple Strategies with Homologous Mapping

2015
PMCID: 4300222
PMID: 25602759
DOI: 10.1371/journal.pone.0116347

[…] ppis continuously grow in size, they have become increasingly useful for reconstructing ppi networks in an interesting organism., for an interesting organism, several computational methods, such as pathblast [,] and interologs [,], have been proposed to identify ppis through the homologs and orthologs. however, most of these methods focus on predicting ppis in a target organism mapped from one […]

library_books

Systems Biology in the Context of Big Data and Networks

2014
PMCID: 4058291
PMID: 24982882
DOI: 10.1155/2014/428570

[…] the cell. thus, ppi networks of one or more species can be used to first determine complementary domain pairs and then to predict interactions between new protein pairs corresponding to a species., pathblast [] is a network alignment and search tool for comparing protein interaction networks across species to identify protein pathways and complexes that have been conserved by evolution. […]

library_books

Applied Graph Mining Algorithms to Study Biomolecular Interaction Networks

2014
PMCID: 3996886
PMID: 24800226
DOI: 10.1155/2014/439476

[…] to compute the alignment of the two networks as the optimal alignment of the subnetworks., a series of networkblast algorithms have been reported for the global alignment of networks. for example, pathblast [] is the first one of such algorithms to search for high-probability pathway alignments between two ppi networks []. a later version, networkblast [, ], constructs a general framework […]


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PathBLAST institution(s)
Whitehead Institute for Biomedical Research, Cambridge, MA, USA

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